genome.fa.s2.2.7.7.80.10.50.1000.17.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  17  of  206  ( 24623 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5091028--5091082	9	6.1	9	91	0	92	47	12	10	29	1.76
5091520--5091545	5	5.2	5	100	0	52	19	19	19	42	1.90
5094193--5094271	37	2.1	37	97	0	149	22	27	13	35	1.93
5109496--5109536	20	2.0	20	90	0	64	7	24	36	31	1.83
5110629--5110693	25	2.6	25	87	0	85	38	23	16	21	1.93
5124559--5124758	39	5.2	39	85	1	276	32	23	13	31	1.92
5124558--5124758	77	2.6	77	84	0	276	32	22	12	31	1.92
5130139--5130175	17	2.2	17	100	0	74	18	13	45	21	1.84
5133187--5133274	44	2.0	44	100	0	176	27	29	13	29	1.94
5134304--5134425	57	2.1	57	80	10	133	43	14	22	19	1.87
5134336--5134536	108	1.9	105	86	3	285	38	17	20	22	1.93
5135130--5135280	49	3.1	49	68	5	126	32	17	22	27	1.97
5136927--5136961	18	1.9	18	94	0	61	40	5	17	37	1.73
5138452--5138496	22	2.0	23	86	4	65	57	4	0	37	1.19
5139191--5140393	555	2.2	555	99	0	2365	25	19	20	33	1.97
5142131--5142166	5	7.2	5	100	0	72	41	19	19	19	1.90
5142726--5142785	30	2.0	30	83	3	75	41	0	38	20	1.52
5143000--5143036	9	4.1	9	92	0	65	29	10	13	45	1.77
5147350--5147399	21	2.4	21	86	0	73	28	26	28	18	1.98
5156060--5156191	36	3.6	37	77	13	132	19	14	31	34	1.92
5157361--5157406	21	2.2	21	77	18	51	26	28	8	36	1.86
5168571--5169081	257	2.0	257	84	2	668	33	18	26	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5175121--5175154	16	2.1	17	88	5	52	35	20	5	38	1.77
5177406--5177473	26	2.6	26	92	0	109	25	26	26	22	2.00
5194678--5194715	19	2.0	19	89	0	58	44	0	18	36	1.50
5197180--5197204	12	2.1	12	100	0	50	16	28	32	24	1.96
5210643--5210837	51	3.9	50	82	3	212	30	26	16	26	1.97
5222328--5222403	25	3.0	25	79	7	82	40	9	14	35	1.78
5242951--5242989	20	2.0	20	90	10	62	15	23	5	56	1.59
5243197--5243374	50	3.6	50	79	3	173	21	26	23	28	1.99
5245641--5245690	25	2.0	25	100	0	100	44	4	16	36	1.66
5247638--5247678	20	2.0	20	95	0	73	14	12	9	63	1.52
5251977--5252001	6	4.2	6	100	0	50	16	16	0	68	1.22
5252190--5252698	253	2.0	253	100	0	1018	42	21	9	27	1.83
5261458--5261505	24	2.0	24	95	0	87	16	14	18	50	1.79
5262335--5262638	159	1.9	163	87	7	449	41	12	9	36	1.76
5263196--5263849	125	5.3	125	91	0	985	28	17	21	31	1.97
5265189--5265273	44	1.9	44	100	0	170	29	21	20	29	1.98
5266901--5267283	114	3.4	114	97	0	712	41	8	10	39	1.70
5267291--5267655	21	17.2	21	86	4	475	26	0	26	46	1.53
5267291--5267655	106	3.4	105	88	3	502	26	0	26	46	1.53
5267615--5267682	27	2.6	27	81	6	77	23	0	29	47	1.52
5267938--5267984	21	2.2	21	85	7	60	10	21	31	36	1.88
5268219--5268262	18	2.4	18	88	0	70	45	6	27	20	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5269097--5269134	20	1.9	20	84	10	51	55	7	2	34	1.43
5270122--5270164	11	3.8	12	80	20	56	44	0	30	25	1.55
5276653--5276728	38	2.0	38	92	0	125	31	14	23	30	1.94
5280911--5280958	19	2.6	19	77	12	55	62	6	4	27	1.38
5281912--5281948	17	2.1	18	85	14	51	81	0	8	10	0.89
5283116--5283714	44	13.8	44	73	8	303	28	23	19	28	1.98
5283334--5283542	88	2.4	88	92	0	346	32	23	15	28	1.96
5283762--5284069	132	2.3	132	92	0	519	23	23	22	30	1.99
5284102--5284602	87	5.8	87	93	0	822	25	24	22	28	1.99
5285736--5285764	14	2.1	14	93	6	51	62	0	6	31	1.22
5286042--5286085	17	2.4	18	81	7	54	61	0	4	34	1.16
5287968--5288014	7	6.9	7	86	13	71	14	14	0	70	1.18
5287977--5288015	13	2.9	13	96	3	69	12	15	0	71	1.14
5288895--5288990	45	2.1	46	81	12	110	10	12	5	71	1.28
5288961--5288996	14	2.7	13	87	8	54	13	5	5	75	1.17
5288933--5288996	32	2.0	32	82	11	78	12	9	4	73	1.23
5288880--5288998	53	2.2	54	79	10	138	9	13	4	73	1.23
5294444--5295076	318	2.0	317	96	0	1176	32	16	21	28	1.96
5304034--5304079	9	5.1	9	97	0	83	47	10	8	32	1.69
5308569--5308621	20	2.7	19	85	8	70	28	22	16	32	1.96
5313278--5313387	56	2.0	56	98	0	211	24	7	30	37	1.83
5316392--5316508	27	4.4	26	74	9	85	41	11	22	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5318001--5318063	26	2.4	26	86	0	90	38	14	7	39	1.75
5337209--5337361	49	3.4	43	71	19	123	28	18	18	34	1.95
5337207--5337623	94	4.5	95	80	4	418	28	18	18	33	1.95
5337589--5337699	44	2.5	44	82	2	134	27	14	21	36	1.93
5337503--5337761	138	1.9	137	81	2	313	28	18	19	33	1.95
5337815--5338062	44	5.5	44	68	13	130	29	21	18	31	1.97
5337815--5338107	138	2.1	138	84	1	381	29	21	18	30	1.97
5347418--5347458	7	5.7	7	83	16	57	82	0	0	17	0.66
5347412--5347458	15	3.1	16	88	8	64	80	0	0	19	0.70
5357433--5357563	65	2.0	65	100	0	262	34	6	12	47	1.66
5360008--5360197	31	6.1	31	80	3	186	21	26	12	40	1.88
5367640--5367670	16	1.9	16	93	0	53	74	0	3	22	0.96
5371449--5371547	47	2.1	47	82	3	117	35	23	10	31	1.88
5375144--5375187	20	2.1	21	84	12	56	45	4	0	50	1.22
5376865--5376901	2	18.5	2	100	0	74	48	0	0	51	1.00
5376897--5376949	16	3.3	17	75	22	60	24	9	0	66	1.21
5378652--5379134	241	2.0	241	93	0	822	31	17	22	29	1.96
5387039--5387099	12	5.1	12	75	15	54	42	26	4	26	1.75
5388388--5388414	7	3.9	7	100	0	54	40	0	0	59	0.98
5395259--5395456	105	1.9	105	94	0	351	28	20	17	33	1.95
5399056--5399101	9	5.2	9	92	2	67	56	0	43	0	0.99
5399057--5399097	3	13.7	3	89	0	64	60	0	39	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5407363--5407461	27	3.7	27	71	10	67	36	19	27	17	1.94
5412268--5412305	19	2.0	19	100	0	76	26	15	15	42	1.87
5413934--5413967	17	2.0	17	100	0	68	29	11	11	47	1.76
5417465--5417495	14	2.1	15	94	5	55	3	22	0	74	0.96
5419993--5420030	19	2.0	19	85	10	51	21	42	0	36	1.53
5430586--5430651	22	3.0	22	93	0	105	33	15	25	25	1.95
5433708--5433866	61	2.6	61	81	3	178	28	25	16	28	1.97
5433728--5433906	61	2.9	59	82	7	182	28	24	16	31	1.96
5440838--5440991	41	3.7	41	80	7	168	24	19	27	29	1.98
5440837--5440991	83	1.9	84	85	11	221	23	19	27	29	1.98
5441153--5441184	16	1.9	17	93	6	57	40	0	21	37	1.54
5443829--5443884	3	18.7	3	100	0	112	32	0	0	67	0.91
5461945--5462133	49	3.7	50	82	6	202	23	28	21	25	1.99
5461945--5462141	56	3.8	50	82	6	200	23	28	21	26	1.99
5472261--5472549	50	5.7	50	82	4	296	22	29	21	27	1.99
5474973--5475022	19	2.5	20	84	12	68	58	32	4	6	1.41
5475283--5475375	5	18.8	5	79	10	102	36	21	5	36	1.77
5475307--5475372	20	3.3	20	95	2	116	36	21	3	39	1.69
5480062--5480110	23	2.2	23	85	10	66	61	2	0	36	1.08
5494384--5494429	24	2.0	23	82	4	56	43	17	8	30	1.79
5495275--5495344	34	2.1	34	97	0	131	34	27	17	21	1.95
5501158--5501211	17	3.2	18	80	19	64	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5501158--5501202	17	2.8	17	86	10	67	48	0	0	51	1.00
5504922--5504953	16	2.0	16	93	0	55	59	9	0	31	1.29
5510772--5510853	22	3.7	23	75	14	73	29	14	30	25	1.95
5510814--5510910	22	4.4	21	76	5	86	35	17	26	20	1.95
5512970--5512994	13	1.9	13	100	0	50	8	32	32	28	1.86
5520758--5520810	19	2.7	19	88	8	72	60	3	0	35	1.15
5521174--5521307	62	2.2	58	85	5	178	41	2	2	52	1.29
5522704--5522771	31	2.2	31	84	10	86	44	20	10	25	1.83
5524859--5524909	19	2.7	20	84	9	70	50	1	0	47	1.12
5526214--5526266	25	2.1	25	89	0	79	11	22	7	58	1.57

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206